Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006936.1 Hibiscus syriacus cultivar Beakdansim tig00017808_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 2176229
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 9
Found at i:1349103 original size:28 final size:28
Alignment explanation
Indices: 1349066--1349122 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
1349056 TTATTTTTAG
* *
1349066 TGTTTATTA-TATATTTATTAATTATTTT
1 TGTTAATTATTATATTAATTAA-TATTTT
*
1349094 TGTTAATTATTTTATTAATTAATATTTT
1 TGTTAATTATTATATTAATTAATATTTT
1349122 T
1 T
1349123 CCCGATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.67
Consensus pattern (28 bp):
TGTTAATTATTATATTAATTAATATTTT
Found at i:1354026 original size:29 final size:29
Alignment explanation
Indices: 1353993--1354056 Score: 128
Period size: 29 Copynumber: 2.2 Consensus size: 29
1353983 TTGGTCGGAA
1353993 GCAGAAGATATGGAACTTATTTCTGCTGT
1 GCAGAAGATATGGAACTTATTTCTGCTGT
1354022 GCAGAAGATATGGAACTTATTTCTGCTGT
1 GCAGAAGATATGGAACTTATTTCTGCTGT
1354051 GCAGAA
1 GCAGAA
1354057 ATGTGGTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (29 bp):
GCAGAAGATATGGAACTTATTTCTGCTGT
Found at i:1356942 original size:31 final size:30
Alignment explanation
Indices: 1356907--1357016 Score: 85
Period size: 33 Copynumber: 3.4 Consensus size: 30
1356897 AAATTTGTAC
1356907 TATGACTAAATAATTTGTTACAAATTGTTAT
1 TATGA-TAAATAATTTGTTACAAATTGTTAT
* * *
1356938 TATGAAAGAATAGTATTTGTCACAAATTTTTAT
1 TATGATA-AATA--ATTTGTTACAAATTGTTAT
* * *
1356971 AATGAGAAATTAATATTAGTTATAAATTGTTAT
1 TATGATAAA-TAAT-TT-GTTACAAATTGTTAT
*
1357004 TTTGATTAAATAA
1 TATGA-TAAATAA
1357017 ATTTATCACA
Statistics
Matches: 61, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
30 1 0.02
31 11 0.18
32 4 0.07
33 42 0.69
34 3 0.05
ACGTcount: A:0.42, C:0.04, G:0.11, T:0.44
Consensus pattern (30 bp):
TATGATAAATAATTTGTTACAAATTGTTAT
Found at i:1363909 original size:20 final size:21
Alignment explanation
Indices: 1363879--1363917 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
1363869 CCCCTTCAAA
*
1363879 GGGGGGAATCGGTTCCCTCAT
1 GGGGGGAATCGATTCCCTCAT
1363900 GGGGGG-ATCGATTCCCTC
1 GGGGGGAATCGATTCCCTC
1363918 TGCACAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.13, C:0.26, G:0.38, T:0.23
Consensus pattern (21 bp):
GGGGGGAATCGATTCCCTCAT
Found at i:1367260 original size:22 final size:21
Alignment explanation
Indices: 1367218--1367257 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
1367208 GAGTTTGTTT
*
1367218 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
1367239 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
1367258 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:1369915 original size:181 final size:180
Alignment explanation
Indices: 1369544--1370037 Score: 421
Period size: 181 Copynumber: 2.7 Consensus size: 180
1369534 ATATATGCTA
* ** * * * * *
1369544 TAACTATAGTTAAAATTTATAACTACAAATATAATTTGTCACAA-AAA-CATGAATATCATTATT
1 TAACTATAATTAAAACATATAACGAAAAACAAAATTTGTCACAATAAATC-TGAATCTCATTATT
* * * * * **
1369607 TTTTGTGACAATGTTTCTTGTAATAATTATTAACACTTATAGTTACAAAATTTGTCACTATATGA
65 TGTTGTGACAATTTTTTTTGTAACAATAATTAACACTTATAGTTACAAAACATGTCACTATATGA
* * *
1369672 CTTTTTTGGCGCAAAAAAATATGGAGGGAAATCTTTGTGATAGTATATTTTG
130 CTTTTTTGGCACAAAAAAATATGGA-GGAAATCTTTATGATAGTACATTTTG
* * ** * * *
1369724 TTAGTATAATTAAAACATATAACGACAAAA-ACTATTTTTTACTAATAACT-TGAATCTCATTAT
1 TAACTATAATTAAAACATATAACGA-AAAACAAAATTTGTCAC-AATAAATCTGAATCTCATTAT
*
1369787 TTGTTGTGACAATTTTTTTTGTAACAATAATTATA-GCTTATAGTTACAAAACATGTCACTATAT
64 TTGTTGTGACAATTTTTTTTGTAACAATAATTA-ACACTTATAGTTACAAAACATGTCACTATAT
* * * *
1369851 GATTTTGTTTTTGTAC-AAAAAAT-TGGA-GATAATCATTTATGACTA-TACGTTTTG
128 GA-CTT-TTTTGGCACAAAAAAATATGGAGGA-AATC-TTTATGA-TAGTACATTTTG
* ** *
1369905 TAACTATAATTAAAATATATAATTAAAAACAAAATTTGTCACAATAAATCTAAATCTCATTATTT
1 TAACTATAATTAAAACATATAACGAAAAACAAAATTTGTCACAATAAATCTGAATCTCATTATTT
* * * * * * * * * ** *
1369970 GTTATGACAATTTTTTCTGTCATAGTTACTAAAACTTTTAGTTACAAAATTTGTCACTATATGCC
66 GTTGTGACAATTTTTTTTGTAACAATAATTAACACTTATAGTTACAAAACATGTCACTATATGAC
1370035 TTT
131 TTT
1370038 AATTTGGCTC
Statistics
Matches: 249, Mismatches: 52, Indels: 27
0.76 0.16 0.08
Matches are distributed among these distances:
179 3 0.01
180 44 0.18
181 182 0.73
182 14 0.06
183 6 0.02
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (180 bp):
TAACTATAATTAAAACATATAACGAAAAACAAAATTTGTCACAATAAATCTGAATCTCATTATTT
GTTGTGACAATTTTTTTTGTAACAATAATTAACACTTATAGTTACAAAACATGTCACTATATGAC
TTTTTTGGCACAAAAAAATATGGAGGAAATCTTTATGATAGTACATTTTG
Found at i:1371991 original size:55 final size:54
Alignment explanation
Indices: 1371929--1372107 Score: 198
Period size: 55 Copynumber: 3.3 Consensus size: 54
1371919 CTGAATTAGC
* *
1371929 GATTGAGCACCACTGTGCATCAATCGAAAGTTGACACCTCTGTGTAGCTAAAAT
1 GATTGAGCACCTCTGTGCATCAATCGAAAGCTGACACCTCTGTGTAGCTAAAAT
* * * * * *
1371983 GGATTGAGCACCTCTGTGCTTCAACCGGGAA-CTGACACCTATGTGCAGTTAAAAAT
1 -GATTGAGCACCTCTGTGCATCAATC-GAAAGCTGACACCTCTGTGTAGCT-AAAAT
* * * * *
1372039 GACTGAGCACCTCTGTGCATTAGTCGAGAGCTGATACCTCTGTGTAGCTAAAATT
1 GATTGAGCACCTCTGTGCATCAATCGAAAGCTGACACCTCTGTGTAGCTAAAA-T
1372094 GATTGAGCACCTCT
1 GATTGAGCACCTCT
1372108 ATACTTCAAT
Statistics
Matches: 100, Mismatches: 20, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
54 6 0.06
55 86 0.86
56 8 0.08
ACGTcount: A:0.28, C:0.23, G:0.22, T:0.27
Consensus pattern (54 bp):
GATTGAGCACCTCTGTGCATCAATCGAAAGCTGACACCTCTGTGTAGCTAAAAT
Found at i:1373989 original size:36 final size:35
Alignment explanation
Indices: 1373933--1374003 Score: 106
Period size: 36 Copynumber: 2.0 Consensus size: 35
1373923 AACATCTACC
*
1373933 AAACTTTATCAAACTTTGAAAAACATTTTTCAAAG
1 AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
* *
1373968 AAACATTTACCAAACTTTGAAAAATATTTTTTAAAG
1 AAAC-TTTACCAAACTTTGAAAAACATTTTTCAAAG
1374004 TTGGTTTCCA
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
35 4 0.12
36 28 0.88
ACGTcount: A:0.46, C:0.13, G:0.06, T:0.35
Consensus pattern (35 bp):
AAACTTTACCAAACTTTGAAAAACATTTTTCAAAG
Found at i:1378555 original size:36 final size:36
Alignment explanation
Indices: 1378500--1378579 Score: 126
Period size: 36 Copynumber: 2.2 Consensus size: 36
1378490 CCCATTCCTA
* *
1378500 TTTTC-AACAAACATCTACCAAACTTTGAAAAATAT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAACAT
*
1378535 TTTTCAAAGAAACATTTACCAAACTTTGAAAAACAT
1 TTTTCAAAGAAACATCTACCAAACTTTGAAAAACAT
1378571 TTTTCAAAG
1 TTTTCAAAG
1378580 TTGGTTGCCA
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
35 5 0.12
36 36 0.88
ACGTcount: A:0.45, C:0.17, G:0.05, T:0.33
Consensus pattern (36 bp):
TTTTCAAAGAAACATCTACCAAACTTTGAAAAACAT
Found at i:1378578 original size:21 final size:21
Alignment explanation
Indices: 1378518--1378578 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 21
1378508 AAACATCTAC
*
1378518 CAAACTTTGAAAAATATTTTT
1 CAAACTTTGAAAAACATTTTT
**
1378539 CAAA----G--AAACATTTAC
1 CAAACTTTGAAAAACATTTTT
1378554 CAAACTTTGAAAAACATTTTT
1 CAAACTTTGAAAAACATTTTT
1378575 CAAA
1 CAAA
1378579 GTTGGTTGCC
Statistics
Matches: 29, Mismatches: 5, Indels: 12
0.63 0.11 0.26
Matches are distributed among these distances:
15 11 0.38
17 1 0.03
19 1 0.03
21 16 0.55
ACGTcount: A:0.48, C:0.15, G:0.05, T:0.33
Consensus pattern (21 bp):
CAAACTTTGAAAAACATTTTT
Found at i:1380230 original size:181 final size:182
Alignment explanation
Indices: 1379899--1380334 Score: 669
Period size: 181 Copynumber: 2.4 Consensus size: 182
1379889 CTAAAACGAT
* ** * * * *
1379899 ATATGACAAAACCGATATTGAAATGATAAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTC
1 ATATGATAAAACCGATATCAAAATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTC
*
1379964 GGTACTTTAATATAAAGATCGACACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAA
66 GATACTTTAATATAAAGATCGACACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAA
* * *
1380029 GTGTCGATACTTTTAAAAAATGTATCGATCCAAAACGATATACCAGGTAAAA
131 GTGTCGATACTTTAAAAAAATATATCGATCCAAAACGATATAACAGGTAAAA
*
1380081 ATATGATAAAACCGATATCAAAATGATAAAACCGGTAAAACGTTACCGGATATATTGAAAGTGTC
1 ATATGATAAAACCGATATCAAAATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTC
* * **
1380146 GATACTTT-ATATAAGGATCGACACTTTGTGAATTTAAAAGAGAAGCAGTTTTAGCGT-CTATAA
66 GATACTTTAATATAAAGATCGACACTTCGTGAATTTAAAAGAGAAGCAGTTTTA-AATCCTATAA
* *
1380209 TGTGTCGATACTTTAAAAAAATATATCGATCCACAACGATATAACAGGTAAAA
130 AGTGTCGATACTTTAAAAAAATATATCGATCCAAAACGATATAACAGGTAAAA
* *
1380262 ATATGATAAAACAGGTATCAAAATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTC
1 ATATGATAAAACCGATATCAAAATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTC
1380327 GATACTTT
66 GATACTTT
1380335 CGTAAGTACG
Statistics
Matches: 233, Mismatches: 20, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
181 167 0.72
182 66 0.28
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
ATATGATAAAACCGATATCAAAATGATAAAACCGGTAAAACGATACCGGATATATTGAAAGTGTC
GATACTTTAATATAAAGATCGACACTTCGTGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAA
GTGTCGATACTTTAAAAAAATATATCGATCCAAAACGATATAACAGGTAAAA
Found at i:1380274 original size:20 final size:19
Alignment explanation
Indices: 1380246--1380301 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
1380236 GATCCACAAC
*
1380246 GATATAACAGGTAAAAATAT
1 GATAAAACAGGTAAAAA-AT
*
1380266 GATAAAACAGGTATCAAAAT
1 GATAAAACAGGTA-AAAAAT
*
1380286 GATAAAACCGGTAAAA
1 GATAAAACAGGTAAAA
1380302 CGATACCGGA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
19 2 0.06
20 26 0.84
21 3 0.10
ACGTcount: A:0.55, C:0.09, G:0.16, T:0.20
Consensus pattern (19 bp):
GATAAAACAGGTAAAAAAT
Found at i:1380774 original size:183 final size:183
Alignment explanation
Indices: 1380466--1380985 Score: 941
Period size: 183 Copynumber: 2.8 Consensus size: 183
1380456 AACATATCCG
* * * *
1380466 AAAGTGTCGACATTTACACATCGTAACCCATAATTATAATGCAATAGATAATTTTGTAATATAAT
1 AAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
*
1380531 CGGTATAAATATACCAGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
66 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1380596 GTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAA
131 GTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAA
*
1380649 AAAGTGTCGACATTTACACATCGGAACCTAGAATTATAATGTAATAGATAATTTTGTAATATAAC
1 AAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
1380714 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
66 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
1380779 GTGTCGGTACTTTTTGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAA
131 GTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAA
1380832 AAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
1 AAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
1380897 CGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAGCCTATATCGACACTTTTTAATTTT
66 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
*
1380962 GTGTCAGTACTTTATGTCCAGAAT
131 GTGTCGGTACTTTATGTCCAGAAT
1380986 TATAATGTAC
Statistics
Matches: 324, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 324 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.34
Consensus pattern (183 bp):
AAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGTCAA
Found at i:1381072 original size:120 final size:120
Alignment explanation
Indices: 1380859--1381105 Score: 395
Period size: 120 Copynumber: 2.1 Consensus size: 120
1380849 ACATCGGAAC
* **
1380859 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAAATTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
* *
1380924 GAATAGGTCTACAGCCTATATCGACACTTTTTAATTTTGTGTCAGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCAGTACTTTATGT
* * *
1380979 CCAGAATTATAATGTACTAGATAAATTTGTAATATAACCGGTATAAGTATACCAGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAAATTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
* * *
1381044 GAATAGGTCTACAACCTATGTTGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCAGTACTTTATGT
1381099 CCAGAAT
1 CCAGAAT
1381106 GGAAGAAAAA
Statistics
Matches: 116, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 116 1.00
ACGTcount: A:0.33, C:0.13, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAAATTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCAGTACTTTATGT
Found at i:1381225 original size:303 final size:303
Alignment explanation
Indices: 1380678--1381288 Score: 1107
Period size: 303 Copynumber: 2.0 Consensus size: 303
1380668 ATCGGAACCT
* *
1380678 AGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGA
1 AGAATTATAATGTAATAGATAAATTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGA
*
1380743 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTTTGTCCAGAATGGAAG
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
1380808 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
131 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
* *
1380873 TAATAGATAATTTTGTAATATAACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAG
196 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
*
1380938 CCTATATCGACACTTTTTAATTTTGTGTC-AGTACTTTATGTCC
261 CCTATATCGACACTTTTTAATATTGTGTCGA-TACTTTATGTCC
* * *
1380981 AGAATTATAATGTACTAGATAAATTTGTAATATAACCGGTATAAGTATACCAGTTTTATTAGCGA
1 AGAATTATAATGTAATAGATAAATTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGA
* *
1381046 ATAGGTCTACAACCTATGTTGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
66 ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
1381111 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
131 AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
1381176 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
196 TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
1381241 CCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCC
261 CCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCC
1381284 AGAAT
1 AGAAT
1381289 GGAAGAAAAA
Statistics
Matches: 296, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
303 295 1.00
304 1 0.00
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (303 bp):
AGAATTATAATGTAATAGATAAATTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGCGA
ATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAG
AAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATG
TAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAA
CCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCC
Found at i:1381287 original size:183 final size:183
Alignment explanation
Indices: 1380979--1381471 Score: 878
Period size: 183 Copynumber: 2.7 Consensus size: 183
1380969 TACTTTATGT
* * * *
1380979 CCAGAATTATAATGTACTAGATAAATTTGTAATATAACCGGTATAAGTATACCAGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
* *
1381044 GAATAGGTCTACAACCTATGTTGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
*
1381109 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAAC
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCAACATTTACACATCGGAAC
*
1381162 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
*
1381227 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
1381292 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCAACATTTACACATCGGAAC
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCAACATTTACACATCGGAAC
*
1381345 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCTGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
* *
1381410 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATATCCAGAAT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
1381472 TATAATGTAC
Statistics
Matches: 297, Mismatches: 13, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
183 297 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.34
Consensus pattern (183 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCAGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGA
AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCAACATTTACACATCGGAAC
Found at i:1381408 original size:486 final size:486
Alignment explanation
Indices: 1380497--1381756 Score: 2315
Period size: 486 Copynumber: 2.6 Consensus size: 486
1380487 CGTAACCCAT
* * * * *
1380497 AATTATAATGCAATAGATAATTTTGTAATATAATCGGTATAAATATACCAGTTTTATGAGCGAAT
1 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCAGTTTTATTAGCGAAT
*
1380562 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
*
1380627 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCTAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
1380692 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
* *
1380757 TATATCGACACTTTTTAATATTGTGTCGGTACTTTTTGTCCAGAATGGAAGAAAAATGTGTCGAT
261 TATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGAAGAAAAATGTGTCGAT
*
1380822 ACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTT
326 ACCTTGTCAAAAAGTGTCAACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTT
*
1380887 GTAATATAACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAGCCTATATCGACACT
391 GTAATATAACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACT
*
1380952 TTTTAATTTTGTGTCAGTACTTTATGTCCAG
456 TTTTAATTTTGTGTCAGTACTTTATATCCAG
*
1380983 AATTATAATGTACTAGATAAATTTGTAATATAACCGGTATAAGTATACCAGTTTTATTAGCGAAT
1 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCAGTTTTATTAGCGAAT
*
1381048 AGGTCTACAACCTATGTTGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
1381113 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
1381178 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
1381243 TATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGAAGAAAAATGTGTCGAT
261 TATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGAAGAAAAATGTGTCGAT
1381308 ACCTTGTCAAAAAGTGTCAACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTT
326 ACCTTGTCAAAAAGTGTCAACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTT
1381373 GTAATATAACCGGTATAAATATACCT-GTTTTATGAGCGAATAGGTCTACAACCTATATCGACAC
391 GTAATATAACCGGTATAAATATA-CTGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACAC
*
1381437 TTTTTAATTTTGTGTCGGTACTTTATATCCAG
455 TTTTTAATTTTGTGTCAGTACTTTATATCCAG
* *
1381469 AATTATAATGTACTAGATAATTTTGTAATATAACCGATATAAGTATACCTGTTTTATTAGCGAAT
1 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCAGTTTTATTAGCGAAT
*
1381534 AGGTCTACAACCTATGTCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
* *
1381599 AAATGTGTCTATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
*
1381664 ATAGATAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
1381729 TATATCGACACTTTTTAATATTGTGTCG
261 TATATCGACACTTTTTAATATTGTGTCG
1381757 CTAATTTTAA
Statistics
Matches: 750, Mismatches: 23, Indels: 2
0.97 0.03 0.00
Matches are distributed among these distances:
486 748 1.00
487 2 0.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (486 bp):
AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCAGTTTTATTAGCGAAT
AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
ATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACC
TATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGAAGAAAAATGTGTCGAT
ACCTTGTCAAAAAGTGTCAACATTTACACATCGGAACCCAGAATTATAATGTAATAGATAATTTT
GTAATATAACCGGTATAAATATACTGGTTTTATGAGCGAATAGGTCTACAACCTATATCGACACT
TTTTAATTTTGTGTCAGTACTTTATATCCAG
Found at i:1381471 original size:303 final size:303
Alignment explanation
Indices: 1381162--1381756 Score: 1064
Period size: 303 Copynumber: 2.0 Consensus size: 303
1381152 ACATCGGAAC
*
1381162 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGC
1381227 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGA
*
1381292 AGAAAAATGTGTCGATACCTTGTCAAAAAGTGTCAACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTATCAACATTTACACATCGGAACCCAGAATTATAA
*
1381357 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCTGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
*
1381422 AACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATAT
261 AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATAT
* * * *
1381465 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGATATAAGTATACCTGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGC
* * *
1381530 GAATAGGTCTACAACCTATGTCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAATGGA
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGA
* *
1381595 AGAAAAATGTGTCTATACCTTGTCAAAAAGTATCGACATTTACACATCGGAACCCAGAATTATAA
131 AGAAAAATGTGTCGATACCTTGTCAAAAAGTATCAACATTTACACATCGGAACCCAGAATTATAA
*
1381660 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTAC
196 TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
1381725 AACCTATATCGACACTTTTTAATATTGTGTCG
261 AACCTATATCGACACTTTTTAATATTGTGTCG
1381757 CTAATTTTAA
Statistics
Matches: 278, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
303 278 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (303 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCGGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGATACTTTATGTCCAGAATGGA
AGAAAAATGTGTCGATACCTTGTCAAAAAGTATCAACATTTACACATCGGAACCCAGAATTATAA
TGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTAC
AACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATAT
Found at i:1381558 original size:120 final size:120
Alignment explanation
Indices: 1381345--1381591 Score: 440
Period size: 120 Copynumber: 2.1 Consensus size: 120
1381335 ACATCGGAAC
*
1381345 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCTGTTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCTGTTTTATGAGC
1381410 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATAT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATAT
* * *
1381465 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGATATAAGTATACCTGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCTGTTTTATGAGC
* *
1381530 GAATAGGTCTACAACCTATGTCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATAT
1381585 CCAGAAT
1 CCAGAAT
1381592 GGAAGAAAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.32, C:0.14, G:0.15, T:0.39
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGATATAAATATACCTGTTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATAT
Found at i:1384995 original size:23 final size:23
Alignment explanation
Indices: 1384936--1384996 Score: 77
Period size: 23 Copynumber: 2.7 Consensus size: 23
1384926 TCCCGTTAAA
*
1384936 TACCTATTTTATTATATAAGCGC
1 TACCTATTATATTATATAAGCGC
* * *
1384959 TATCTATTACATTATATAAGCGT
1 TACCTATTATATTATATAAGCGC
*
1384982 TACCTAATATATTAT
1 TACCTATTATATTAT
1384997 TGTACTTGAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 31 1.00
ACGTcount: A:0.34, C:0.15, G:0.07, T:0.44
Consensus pattern (23 bp):
TACCTATTATATTATATAAGCGC
Found at i:1385021 original size:87 final size:87
Alignment explanation
Indices: 1384779--1385024 Score: 420
Period size: 87 Copynumber: 2.8 Consensus size: 87
1384769 AGGTCAATAG
* * *
1384779 AAGCGCTACCTATTACATTATATAAGCGCTACCTAATATGTTATTGTACTTGATAATATTTCCCA
1 AAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTTCCCG
1384844 TTAAATACCTATTTTATTATAT
66 TTAAATACCTATTTTATTATAT
* *
1384866 AAACACTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTTCCCG
1 AAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTTCCCG
1384931 TTAAATACCTATTTTATTATAT
66 TTAAATACCTATTTTATTATAT
* **
1384953 AAGCGCTATCTATTACATTATATAAGCGTTACCTAATATATTATTGTACTTGATAATATTTCTGG
1 AAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTTCCCG
1385018 TTAAATA
66 TTAAATA
1385025 ATATAACATA
Statistics
Matches: 149, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
87 149 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.42
Consensus pattern (87 bp):
AAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTTCCCG
TTAAATACCTATTTTATTATAT
Found at i:1385804 original size:6 final size:6
Alignment explanation
Indices: 1385793--1385819 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1385783 AGTGATTTTC
1385793 TATAAT TATAAT TATAAT TATAAT TAT
1 TATAAT TATAAT TATAAT TATAAT TAT
1385820 TATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TATAAT
Found at i:1386273 original size:21 final size:20
Alignment explanation
Indices: 1386229--1386277 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1386219 TAATGTTATT
*
1386229 TAATA-TATTAAATATAATA
1 TAATATTATGAAATATAATA
*
1386248 TAATATTATGAAATATATTCA
1 TAATATTATGAAATATAAT-A
1386269 TAATATTAT
1 TAATATTAT
1386278 ATTTTAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 5 0.19
20 11 0.42
21 10 0.38
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TAATATTATGAAATATAATA
Found at i:1386278 original size:29 final size:27
Alignment explanation
Indices: 1386215--1386278 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 27
1386205 TTCTTTTTAC
* **
1386215 ATTATAATGTTATTTAATATATTAAAT
1 ATTATAATATTATGAAATATATTAAAT
1386242 ATAATATAATATTATGAAATATATTCATAAT
1 AT--TATAATATTATGAAATATATT-A-AAT
1386273 ATTATA
1 ATTATA
1386279 TTTTAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.07
29 22 0.73
30 1 0.03
31 5 0.17
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (27 bp):
ATTATAATATTATGAAATATATTAAAT
Found at i:1387220 original size:2 final size:2
Alignment explanation
Indices: 1387215--1387241 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1387205 ATAATGTACC
1387215 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1387242 GCATACATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1391798 original size:32 final size:30
Alignment explanation
Indices: 1391730--1391819 Score: 128
Period size: 32 Copynumber: 2.9 Consensus size: 30
1391720 AGAACCATTA
*
1391730 TCCATATGTTCCG-AGGAACATAGGTAACTG
1 TCCATATGTCCCGAAGG-ACATAGGTAACTG
*
1391760 TCCATATGTCCCGAAAGACATAGGTAATCCTG
1 TCCATATGTCCCGAAGGACATAGGTAA--CTG
1391792 TCCATATGTCCCGAAGGACATAGGTAAC
1 TCCATATGTCCCGAAGGACATAGGTAAC
1391820 CCTCGACTCT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
30 23 0.43
31 2 0.04
32 29 0.54
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (30 bp):
TCCATATGTCCCGAAGGACATAGGTAACTG
Found at i:1393315 original size:6 final size:6
Alignment explanation
Indices: 1393304--1393330 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
1393294 AGTGATTTTC
1393304 TATAAT TATAAT TATAAT TATAAT TAT
1 TATAAT TATAAT TATAAT TATAAT TAT
1393331 TATATTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (6 bp):
TATAAT
Found at i:1393784 original size:21 final size:20
Alignment explanation
Indices: 1393740--1393788 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 20
1393730 TAATGTTATT
*
1393740 TAATA-TATTAAATATAATA
1 TAATATTATGAAATATAATA
*
1393759 TAATATTATGAAATATATTCA
1 TAATATTATGAAATATAAT-A
1393780 TAATATTAT
1 TAATATTAT
1393789 ATTTTAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
19 5 0.19
20 11 0.42
21 10 0.38
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (20 bp):
TAATATTATGAAATATAATA
Found at i:1393789 original size:29 final size:27
Alignment explanation
Indices: 1393726--1393789 Score: 65
Period size: 29 Copynumber: 2.2 Consensus size: 27
1393716 TTCTTTTTAC
* **
1393726 ATTATAATGTTATTTAATATATTAAAT
1 ATTATAATATTATGAAATATATTAAAT
1393753 ATAATATAATATTATGAAATATATTCATAAT
1 AT--TATAATATTATGAAATATATT-A-AAT
1393784 ATTATA
1 ATTATA
1393790 TTTTAAAGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
27 2 0.07
29 22 0.73
30 1 0.03
31 5 0.17
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (27 bp):
ATTATAATATTATGAAATATATTAAAT
Found at i:1394737 original size:2 final size:2
Alignment explanation
Indices: 1394732--1394764 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1394722 ATAATGTACC
1394732 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1394765 GCATACATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1399322 original size:32 final size:30
Alignment explanation
Indices: 1399254--1399343 Score: 128
Period size: 32 Copynumber: 2.9 Consensus size: 30
1399244 AGAACCATTA
*
1399254 TCCATATGTTCCG-AGGAACATAGGTAACTG
1 TCCATATGTCCCGAAGG-ACATAGGTAACTG
*
1399284 TCCATATGTCCCGAAAGACATAGGTAATCCTG
1 TCCATATGTCCCGAAGGACATAGGTAA--CTG
1399316 TCCATATGTCCCGAAGGACATAGGTAAC
1 TCCATATGTCCCGAAGGACATAGGTAAC
1399344 CCTCGACTCT
Statistics
Matches: 54, Mismatches: 3, Indels: 6
0.86 0.05 0.10
Matches are distributed among these distances:
30 23 0.43
31 2 0.04
32 29 0.54
ACGTcount: A:0.31, C:0.23, G:0.21, T:0.24
Consensus pattern (30 bp):
TCCATATGTCCCGAAGGACATAGGTAACTG
Found at i:1404927 original size:42 final size:42
Alignment explanation
Indices: 1404876--1404959 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
1404866 CTTTTCAACT
*
1404876 TCAATTCTTCATATTTCATCCCCTTTCATATACTAAACTCAA
1 TCAACTCTTCATATTTCATCCCCTTTCATATACTAAACTCAA
1404918 TCAACTCTTCATATTTCATCCCCTTTCATATACTAAACTCAA
1 TCAACTCTTCATATTTCATCCCCTTTCATATACTAAACTCAA
1404960 ATAAACATAC
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.31, C:0.30, G:0.00, T:0.39
Consensus pattern (42 bp):
TCAACTCTTCATATTTCATCCCCTTTCATATACTAAACTCAA
Found at i:1408057 original size:22 final size:22
Alignment explanation
Indices: 1408029--1408112 Score: 141
Period size: 22 Copynumber: 3.8 Consensus size: 22
1408019 GGCATGTGAA
*
1408029 ATATGTCCCGAAGAACCAATGC
1 ATATGTCCCGAAGGACCAATGC
*
1408051 ATATGTCTCGAAGGACCAATGC
1 ATATGTCCCGAAGGACCAATGC
1408073 ATATGTCCCGAAGGACCAATGC
1 ATATGTCCCGAAGGACCAATGC
*
1408095 ATATGTCCTGAAGGACCA
1 ATATGTCCCGAAGGACCA
1408113 CTATCAATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.20
Consensus pattern (22 bp):
ATATGTCCCGAAGGACCAATGC
Found at i:1408182 original size:32 final size:30
Alignment explanation
Indices: 1408135--1408205 Score: 115
Period size: 32 Copynumber: 2.3 Consensus size: 30
1408125 TCCGAGGAAT
*
1408135 ATAGGTAACTGTCCATATGTCCCGAAGGAC
1 ATAGGTAACTGTCCATATGTCCCGAACGAC
1408165 ATAGGTAATCCTGTCCATATGTCCCGAACGAC
1 ATAGGTAA--CTGTCCATATGTCCCGAACGAC
1408197 ATAGGTAAC
1 ATAGGTAAC
1408206 CCTCGACTCT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
30 9 0.24
32 29 0.76
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (30 bp):
ATAGGTAACTGTCCATATGTCCCGAACGAC
Found at i:1408442 original size:2 final size:2
Alignment explanation
Indices: 1408435--1408488 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
1408425 CTCATTCAAC
1408435 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1408477 TA TA TA TA TA TA
1 TA TA TA TA TA TA
1408489 AACACACCAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1411170 original size:22 final size:23
Alignment explanation
Indices: 1411145--1411205 Score: 92
Period size: 22 Copynumber: 2.8 Consensus size: 23
1411135 GTACTTATGG
*
1411145 ATAGGTCCTTT-GGGGCACATGC
1 ATAGGTCCTTTCGGGACACATGC
1411167 ATAGGT-CTTTCGGGACACATGC
1 ATAGGTCCTTTCGGGACACATGC
1411189 ATAGGTCC-TTCGGGACA
1 ATAGGTCCTTTCGGGACA
1411206 TATTTCACAT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
21 4 0.11
22 31 0.86
23 1 0.03
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (23 bp):
ATAGGTCCTTTCGGGACACATGC
Found at i:1412589 original size:2 final size:2
Alignment explanation
Indices: 1412578--1412627 Score: 66
Period size: 2 Copynumber: 25.5 Consensus size: 2
1412568 AAATACACAA
* * *
1412578 AG AG AA AG AG AG AG AG AG AA AG AG AG AG AG AG AA AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1412620 AG A- AG AG A
1 AG AG AG AG A
1412628 ATAAAAAGGA
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1412597 original size:14 final size:14
Alignment explanation
Indices: 1412578--1412622 Score: 90
Period size: 14 Copynumber: 3.2 Consensus size: 14
1412568 AAATACACAA
1412578 AGAGAAAGAGAGAG
1 AGAGAAAGAGAGAG
1412592 AGAGAAAGAGAGAG
1 AGAGAAAGAGAGAG
1412606 AGAGAAAGAGAGAG
1 AGAGAAAGAGAGAG
1412620 AGA
1 AGA
1412623 AGAGAATAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 31 1.00
ACGTcount: A:0.58, C:0.00, G:0.42, T:0.00
Consensus pattern (14 bp):
AGAGAAAGAGAGAG
Found at i:1421664 original size:94 final size:94
Alignment explanation
Indices: 1421494--1421665 Score: 220
Period size: 94 Copynumber: 1.8 Consensus size: 94
1421484 GATGAGGGGC
* * * **
1421494 ATCGATACCGAGAAACATCGAATCTAATTTTGGTATCGATACCGGTAGGGGGTATCGGTACTGTA
1 ATCGATACCGAGAAACATCGAACCTAATTTTGGTATCGATACCCGAAGGGGGTATCGGTACAATA
* *
1421559 GAAGGGTAGTATCGGTCCATGGTAAGGGT
66 GAAGAGAAGTATCGGTCCATGGTAAGGGT
* * *
1421588 ATCGATACC-AGGCAACATTGAACCTATTTTTGGTATCGATACCCGAAGGGGGTATCGGTACAAT
1 ATCGATACCGA-GAAACATCGAACCTAATTTTGGTATCGATACCCGAAGGGGGTATCGGTACAAT
* *
1421652 AGTATAGAAGTATC
65 AGAAGAGAAGTATC
1421666 AGTACTAGGG
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
93 1 0.02
94 64 0.98
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (94 bp):
ATCGATACCGAGAAACATCGAACCTAATTTTGGTATCGATACCCGAAGGGGGTATCGGTACAATA
GAAGAGAAGTATCGGTCCATGGTAAGGGT
Found at i:1422200 original size:55 final size:55
Alignment explanation
Indices: 1422024--1422183 Score: 275
Period size: 55 Copynumber: 2.9 Consensus size: 55
1422014 TACTACAGGT
* * *
1422024 ACTTCATGTGCATATTCACAGAATTCATCCTGAGTGGATGAATCACCATACAAGC
1 ACTTCGTGTGCATATTCACGGAATTCATCCTGAGTGGATGAATCACCGTACAAGC
*
1422079 ACTTCGTGTGCATATTCACGGAATTCATCCTGAGTGGATGAATCACCGTACATGC
1 ACTTCGTGTGCATATTCACGGAATTCATCCTGAGTGGATGAATCACCGTACAAGC
*
1422134 ACTTCGTGTGCATATTCATGGAATTCATCCTGAGTGGATGAATCACCGTA
1 ACTTCGTGTGCATATTCACGGAATTCATCCTGAGTGGATGAATCACCGTA
1422184 TAAACATTAT
Statistics
Matches: 100, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 100 1.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (55 bp):
ACTTCGTGTGCATATTCACGGAATTCATCCTGAGTGGATGAATCACCGTACAAGC
Found at i:1439648 original size:16 final size:15
Alignment explanation
Indices: 1439627--1439665 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
1439617 TATATGATGA
*
1439627 TCTATGTGATTATATG
1 TCTATGTGA-TATAAG
1439643 TCTATGTGATATAAG
1 TCTATGTGATATAAG
1439658 -CTATGTGA
1 TCTATGTGA
1439666 AATGTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.36
15 5 0.23
16 9 0.41
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.44
Consensus pattern (15 bp):
TCTATGTGATATAAG
Found at i:1439650 original size:42 final size:45
Alignment explanation
Indices: 1439535--1439661 Score: 161
Period size: 45 Copynumber: 2.9 Consensus size: 45
1439525 GATATATGAT
* * *
1439535 ATTGACCTATGTGATTACAAGAAAATGAGATATAAGCTATGTGGC
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATATGGC
1439580 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATAT-G-
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATATGGC
* * ***
1439623 A-TGATCTATGTGATTATATGTCTATGTGATATAAGCTAT
1 ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTAT
1439662 GTGAAATGTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
42 33 0.45
43 1 0.01
44 1 0.01
45 39 0.53
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.35
Consensus pattern (45 bp):
ATTGACCTATGTGATTACATGAAAATGTGATATAAGCTATATGGC
Found at i:1439663 original size:14 final size:14
Alignment explanation
Indices: 1439604--1439665 Score: 58
Period size: 14 Copynumber: 4.4 Consensus size: 14
1439594 TTACATGAAA
1439604 ATGTGATATAAGCT
1 ATGTGATATAAGCT
*
1439618 ATATGATGAT---CT
1 ATGTGAT-ATAAGCT
*
1439630 ATGTGATTATATGTCT
1 ATGTGA-TATAAG-CT
1439646 ATGTGATATAAGCT
1 ATGTGATATAAGCT
1439660 ATGTGA
1 ATGTGA
1439666 AATGTTATAA
Statistics
Matches: 39, Mismatches: 3, Indels: 12
0.72 0.06 0.22
Matches are distributed among these distances:
12 9 0.23
13 1 0.03
14 14 0.36
15 7 0.18
16 8 0.21
ACGTcount: A:0.32, C:0.06, G:0.21, T:0.40
Consensus pattern (14 bp):
ATGTGATATAAGCT
Found at i:1439776 original size:23 final size:23
Alignment explanation
Indices: 1439761--1439805 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
1439751 GTCCTTTGGG
1439761 ACAATTCTATGTGGTCATTCGGC
1 ACAATTCTATGTGGTCATTCGGC
*
1439784 ACATTTCTATGTGG-CACTTCGG
1 ACAATTCTATGTGGTCA-TTCGG
1439806 TGCATATTCT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 2 0.10
23 18 0.90
ACGTcount: A:0.20, C:0.22, G:0.22, T:0.36
Consensus pattern (23 bp):
ACAATTCTATGTGGTCATTCGGC
Found at i:1442741 original size:3 final size:3
Alignment explanation
Indices: 1442733--1442758 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
1442723 GGTGTTATAA
1442733 ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG AT
1442759 ATATATGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.31, T:0.35
Consensus pattern (3 bp):
ATG
Found at i:1449258 original size:45 final size:46
Alignment explanation
Indices: 1449209--1449342 Score: 173
Period size: 45 Copynumber: 3.0 Consensus size: 46
1449199 GCTATATGAT
* * *
1449209 ATTGACCTATGTGATTACATGAAAATGAGATATAAGCTATGTGGC-
1 ATTGACCTATGTGATTAAATGAAAATGTGATATAAGCTATGTGACA
*
1449254 ATTGACCTATGTAATTAAATGAAAATGTGATATAAGCTATGTGACA
1 ATTGACCTATGTGATTAAATGAAAATGTGATATAAGCTATGTGACA
* * ***
1449300 ATT-ATCTATGTGATTATATGTCTATGTGATATAAGCTATGTGA
1 ATTGACCTATGTGATTAAATGAAAATGTGATATAAGCTATGTGA
1449343 AATGTTATAA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 75 0.96
46 3 0.04
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (46 bp):
ATTGACCTATGTGATTAAATGAAAATGTGATATAAGCTATGTGACA
Found at i:1449325 original size:16 final size:15
Alignment explanation
Indices: 1449278--1449342 Score: 64
Period size: 15 Copynumber: 4.4 Consensus size: 15
1449268 TTAAATGAAA
1449278 ATGTGATATAAG-CT
1 ATGTGATATAAGTCT
* *
1449292 ATGTGACAATTA-TCT
1 ATGTGA-TATAAGTCT
*
1449307 ATGTGATTATATGTCT
1 ATGTGA-TATAAGTCT
1449323 ATGTGATATAAG-CT
1 ATGTGATATAAGTCT
1449337 ATGTGA
1 ATGTGA
1449343 AATGTTATAA
Statistics
Matches: 41, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
14 14 0.34
15 18 0.44
16 9 0.22
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.40
Consensus pattern (15 bp):
ATGTGATATAAGTCT
Found at i:1449453 original size:23 final size:22
Alignment explanation
Indices: 1449427--1449528 Score: 89
Period size: 23 Copynumber: 4.5 Consensus size: 22
1449417 GGTTCTACAC
1449427 GGTCCTTCAGGACAATTCTATGT
1 GGTCCTTCAGGAC-ATTCTATGT
* ** *
1449450 GGTCGTTTGGGACATTATTATGT
1 GGTCCTTCAGGACATT-CTATGT
*
1449473 GGTCCTTCAGGACATATCTAAGT
1 GGTCCTTCAGGACAT-TCTATGT
* *
1449496 GGTCCTTCGGGATATTTCTATGT
1 GGTCCTTCAGGACA-TTCTATGT
1449519 GG-CACTTCAG
1 GGTC-CTTCAG
1449529 TGCATATTCT
Statistics
Matches: 62, Mismatches: 13, Indels: 8
0.75 0.16 0.10
Matches are distributed among these distances:
22 4 0.06
23 56 0.90
24 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (22 bp):
GGTCCTTCAGGACATTCTATGT
Found at i:1449518 original size:46 final size:46
Alignment explanation
Indices: 1449427--1449528 Score: 120
Period size: 46 Copynumber: 2.2 Consensus size: 46
1449417 GGTTCTACAC
* * *
1449427 GGTCCTTCAGGACAATTCTATGTGGTCGTTTGGGACATTATTATGT
1 GGTCCTTCAGGACAATTCTAAGTGGTCCTTCGGGACATTATTATGT
*
1449473 GGTCCTTCAGGAC-ATATCTAAGTGGTCCTTCGGGATATT-TCTATGT
1 GGTCCTTCAGGACAAT-TCTAAGTGGTCCTTCGGGACATTAT-TATGT
1449519 GG-CACTTCAG
1 GGTC-CTTCAG
1449529 TGCATATTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
45 4 0.08
46 45 0.92
ACGTcount: A:0.20, C:0.19, G:0.25, T:0.36
Consensus pattern (46 bp):
GGTCCTTCAGGACAATTCTAAGTGGTCCTTCGGGACATTATTATGT
Found at i:1449696 original size:2 final size:2
Alignment explanation
Indices: 1449689--1449745 Score: 69
Period size: 2 Copynumber: 28.5 Consensus size: 2
1449679 GGTGATGATG
* * * * *
1449689 TA TA TA TA TA TG TA TG TA TA TG TA TA TG TA TA TA GA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1449731 TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA T
1449746 GTATGTATGT
Statistics
Matches: 45, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (2 bp):
TA
Found at i:1449701 original size:12 final size:12
Alignment explanation
Indices: 1449686--1449749 Score: 71
Period size: 12 Copynumber: 5.5 Consensus size: 12
1449676 GATGGTGATG
1449686 ATGTATATATAT
1 ATGTATATATAT
*
1449698 ATG--TATGTAT
1 ATGTATATATAT
*
1449708 ATGTATATGTAT
1 ATGTATATATAT
1449720 ATAG-ATATATAT
1 AT-GTATATATAT
*
1449732 ATATATATATAT
1 ATGTATATATAT
1449744 ATGTAT
1 ATGTAT
1449750 GTATGTTTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.20
12 34 0.77
13 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.11, T:0.48
Consensus pattern (12 bp):
ATGTATATATAT
Found at i:1451516 original size:70 final size:70
Alignment explanation
Indices: 1451403--1451543 Score: 282
Period size: 70 Copynumber: 2.0 Consensus size: 70
1451393 CCTTATTCTC
1451403 TTATTGTTCCTTCTTCTTTTGAAGCCTCAACTCATGAGTGACTAATGATCCAATGAGCTCATCAA
1 TTATTGTTCCTTCTTCTTTTGAAGCCTCAACTCATGAGTGACTAATGATCCAATGAGCTCATCAA
1451468 GGGTG
66 GGGTG
1451473 TTATTGTTCCTTCTTCTTTTGAAGCCTCAACTCATGAGTGACTAATGATCCAATGAGCTCATCAA
1 TTATTGTTCCTTCTTCTTTTGAAGCCTCAACTCATGAGTGACTAATGATCCAATGAGCTCATCAA
1451538 GGGTG
66 GGGTG
1451543 T
1 T
1451544 ATTACTCCAA
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.24, C:0.21, G:0.18, T:0.36
Consensus pattern (70 bp):
TTATTGTTCCTTCTTCTTTTGAAGCCTCAACTCATGAGTGACTAATGATCCAATGAGCTCATCAA
GGGTG
Found at i:1458431 original size:33 final size:34
Alignment explanation
Indices: 1458366--1458439 Score: 114
Period size: 33 Copynumber: 2.2 Consensus size: 34
1458356 TTCTTCCACA
* *
1458366 AAAGTTACTTTGGATTCAACATTTCCTAGGAGAG
1 AAAGTTACGTTGGATTCAACATCTCCTAGGAGAG
1458400 AAAGTTACGTTGGATTCAA-ATCTCCTAGGAGAG
1 AAAGTTACGTTGGATTCAACATCTCCTAGGAGAG
*
1458433 AATGTTA
1 AAAGTTA
1458440 GTAAACCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 19 0.51
34 18 0.49
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.31
Consensus pattern (34 bp):
AAAGTTACGTTGGATTCAACATCTCCTAGGAGAG
Found at i:1459556 original size:23 final size:22
Alignment explanation
Indices: 1459530--1459574 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
1459520 TTGAATTTGG
1459530 ATTTAAATAAAATAAATTATTTT
1 ATTTAAATAAAA-AAATTATTTT
* * *
1459553 ATTTACATATAAAAATTGTTTT
1 ATTTAAATAAAAAAATTATTTT
1459575 TGAAATTATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 9 0.47
23 10 0.53
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (22 bp):
ATTTAAATAAAAAAATTATTTT
Found at i:1461667 original size:16 final size:16
Alignment explanation
Indices: 1461646--1461681 Score: 63
Period size: 16 Copynumber: 2.2 Consensus size: 16
1461636 ATGGATTCTT
1461646 AACACAAACAAGGATA
1 AACACAAACAAGGATA
*
1461662 AACACAAACAGGGATA
1 AACACAAACAAGGATA
1461678 AACA
1 AACA
1461682 TGGAAGCTGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.61, C:0.19, G:0.14, T:0.06
Consensus pattern (16 bp):
AACACAAACAAGGATA
Found at i:1465662 original size:15 final size:15
Alignment explanation
Indices: 1465638--1465674 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
1465628 GTCATACACC
1465638 TCTA-GGATCATTAT
1 TCTATGGATCATTAT
1465652 TCTATGGATCATTAT
1 TCTATGGATCATTAT
1465667 TCTATGGA
1 TCTATGGA
1465675 GGTGCTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 4 0.18
15 18 0.82
ACGTcount: A:0.27, C:0.14, G:0.16, T:0.43
Consensus pattern (15 bp):
TCTATGGATCATTAT
Found at i:1465901 original size:19 final size:19
Alignment explanation
Indices: 1465879--1465917 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
1465869 GTTTACCAGC
* *
1465879 AATTGTAAAGTTTTTATTT
1 AATTATAAACTTTTTATTT
*
1465898 AATTATGAACTTTTTATTT
1 AATTATAAACTTTTTATTT
1465917 A
1 A
1465918 TTTTGTTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (19 bp):
AATTATAAACTTTTTATTT
Found at i:1468516 original size:16 final size:16
Alignment explanation
Indices: 1468495--1468532 Score: 62
Period size: 14 Copynumber: 2.5 Consensus size: 16
1468485 TGAAATATAA
1468495 TAGAAACAAATGCGAT
1 TAGAAACAAATGCGAT
1468511 TAG-AA-AAATGCGAT
1 TAGAAACAAATGCGAT
1468525 TAGAAACA
1 TAGAAACA
1468533 TGCGAAATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
14 12 0.60
15 4 0.20
16 4 0.20
ACGTcount: A:0.53, C:0.11, G:0.18, T:0.18
Consensus pattern (16 bp):
TAGAAACAAATGCGAT
Found at i:1468521 original size:14 final size:14
Alignment explanation
Indices: 1468502--1468537 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
1468492 TAATAGAAAC
1468502 AAATGCGATTAGAA
1 AAATGCGATTAGAA
1468516 AAATGCGATTAGAA
1 AAATGCGATTAGAA
*
1468530 ACATGCGA
1 AAATGCGA
1468538 AATAAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.47, C:0.11, G:0.22, T:0.19
Consensus pattern (14 bp):
AAATGCGATTAGAA
Found at i:1469524 original size:23 final size:24
Alignment explanation
Indices: 1469480--1469526 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
1469470 CTCTCCTCTC
*
1469480 TTCTTATATTTTCTTGGATGTTTT
1 TTCTTATATTTTCTTCGATGTTTT
1469504 TTCTTAT-TTTTCTTTCG-TGTTTT
1 TTCTTATATTTTC-TTCGATGTTTT
1469527 AATTTTATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.09, C:0.11, G:0.11, T:0.70
Consensus pattern (24 bp):
TTCTTATATTTTCTTCGATGTTTT
Found at i:1470791 original size:31 final size:30
Alignment explanation
Indices: 1470756--1470861 Score: 77
Period size: 31 Copynumber: 3.3 Consensus size: 30
1470746 GACAAAAGTC
1470756 GTTTCAAGGGAAATGATCTCAAAGATTTTAT
1 GTTTCAAGGGAAAT-ATCTCAAAGATTTTAT
** ****
1470787 GTTTCAAGATAAACTATCTCAAGGGAGACAAAACT
1 GTTTCAAGGGAAA-TATCTCAA---AGATTTTA-T
*
1470822 CGTTTCAAGGGAAACAATCTCAAAGATTTTAT
1 -GTTTCAAGGGAAA-TATCTCAAAGATTTTAT
1470854 GTTTCAAG
1 GTTTCAAG
1470862 TGAAGCAATT
Statistics
Matches: 56, Mismatches: 13, Indels: 12
0.69 0.16 0.15
Matches are distributed among these distances:
31 26 0.46
32 2 0.04
33 4 0.07
34 4 0.07
35 1 0.02
36 19 0.34
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.30
Consensus pattern (30 bp):
GTTTCAAGGGAAATATCTCAAAGATTTTAT
Found at i:1470808 original size:67 final size:67
Alignment explanation
Indices: 1470589--1470861 Score: 356
Period size: 65 Copynumber: 4.1 Consensus size: 67
1470579 TTTAGGTATT
* * * * *
1470589 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACGATTTCAAAGA--T
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGATTT
1470652 GA
66 GA
* * *
1470654 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAATCTC--ATATAT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGATTT
1470717 GA
66 GA
* * * **
1470719 TGTTTCGAGAGAAACTGTCTCAAGAGAGACAAAAGTCGTTTCAAGGGAAATGATCTCAAAGATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGATTT
*
1470784 TA
66 GA
* * *
1470786 TGTTTCAAGATAAACTATCTCAAGGGAGACAAAACTCGTTTCAAGGGAAACAATCTCAAAGATTT
1 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGATTT
*
1470851 TA
66 GA
1470853 TGTTTCAAG
1 TGTTTCAAG
1470862 TGAAGCAATT
Statistics
Matches: 181, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
63 2 0.01
65 105 0.58
67 74 0.41
ACGTcount: A:0.40, C:0.14, G:0.19, T:0.27
Consensus pattern (67 bp):
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCGTTTCAAGGGAAACAATCTCAAAGATTT
GA
Found at i:1470838 original size:132 final size:130
Alignment explanation
Indices: 1470589--1470843 Score: 393
Period size: 130 Copynumber: 1.9 Consensus size: 130
1470579 TTTAGGTATT
* * * *
1470589 TGTTTCAAGAGAAATTGTCTCAAGAGAGACAAAATTTGTTTCAAGGGAAACGATTTCAAAGATGA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAGTCGTTTCAAGGGAAACGATCTCAAAGATGA
*
1470654 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAATTCATTTCAAGGGAAACAATCTCATATATGA
66 TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAACAATCTCATATATGA
* *
1470719 TGTTTCGAGAGAAACTGTCTCAAGAGAGACAAAAGTCGTTTCAAGGGAAATGATCTCAAAGATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAGTCGTTTCAAGGGAAACGATCTCAAAGA--T
* * * *
1470784 TATGTTTCAAGATAAACTATCTCAAGGGAGACAAAACTCGTTTCAAGGGAAACAATCTCA
64 GATGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAACAATCTCA
1470844 AAGATTTTAT
Statistics
Matches: 112, Mismatches: 11, Indels: 2
0.90 0.09 0.02
Matches are distributed among these distances:
130 56 0.50
132 56 0.50
ACGTcount: A:0.40, C:0.15, G:0.19, T:0.26
Consensus pattern (130 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAAGTCGTTTCAAGGGAAACGATCTCAAAGATGA
TGTTTCAAGAGAAACTATCTCAAGAGAGACAAAACTCATTTCAAGGGAAACAATCTCATATATGA
Found at i:1479557 original size:12 final size:12
Alignment explanation
Indices: 1479540--1479566 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
1479530 CCATAAATAG
1479540 AGATAAGAAATC
1 AGATAAGAAATC
1479552 AGATAAGAAATC
1 AGATAAGAAATC
1479564 AGA
1 AGA
1479567 GATCAGAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.59, C:0.07, G:0.19, T:0.15
Consensus pattern (12 bp):
AGATAAGAAATC
Found at i:1481225 original size:11 final size:11
Alignment explanation
Indices: 1481209--1481236 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
1481199 CTTATCCGAC
1481209 AGTGACTGGTG
1 AGTGACTGGTG
1481220 AGTGACTGGTG
1 AGTGACTGGTG
1481231 AGTGAC
1 AGTGAC
1481237 GATGACAGAG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.21, C:0.11, G:0.43, T:0.25
Consensus pattern (11 bp):
AGTGACTGGTG
Found at i:1492626 original size:3 final size:3
Alignment explanation
Indices: 1492618--1492694 Score: 145
Period size: 3 Copynumber: 25.7 Consensus size: 3
1492608 AAAATTATTG
*
1492618 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1492666 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1492695 TTTTTTAGAC
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 72 1.00
ACGTcount: A:0.65, C:0.00, G:0.01, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1495284 original size:20 final size:20
Alignment explanation
Indices: 1495236--1495284 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
1495226 TTGTCAGATG
1495236 GTATCGATATTGACCCTTCA
1 GTATCGATATTGACCCTTCA
* * * *
1495256 TTATAGATATTGATCCTTGA
1 GTATCGATATTGACCCTTCA
1495276 GTATCGATA
1 GTATCGATA
1495285 CCCACATTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.29, C:0.16, G:0.16, T:0.39
Consensus pattern (20 bp):
GTATCGATATTGACCCTTCA
Found at i:1502299 original size:19 final size:19
Alignment explanation
Indices: 1502253--1502302 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
1502243 CCTTACTAGA
1502253 AGTATCGATACTCTACCCTTG
1 AGTATCGATACTCTA--CTTG
1502274 A-TATCGATACTCTA-TATG
1 AGTATCGATACTCTACT-TG
1502292 AGTATCGATAC
1 AGTATCGATAC
1502303 CAACGGGTGC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.04
18 3 0.11
19 9 0.33
20 13 0.48
21 1 0.04
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (19 bp):
AGTATCGATACTCTACTTG
Found at i:1502319 original size:143 final size:144
Alignment explanation
Indices: 1502162--1502448 Score: 567
Period size: 143 Copynumber: 2.0 Consensus size: 144
1502152 TATCGATACT
1502162 CGGGTGCTGGGGTATCGATACTGGCCTGAGTATCAATACTAAAATTAGGTTCGATGTTTTGAAAA
1 CGGGTGCTGGGGTATCGATACTGGCCTGAGTATCAATACTAAAATTAGGTTCGATGTTTTGAAAA
1502227 ACCCTAGTATCAATACCCTTACTAGAAGTATCGATACTCTACCCTTGATATCGATACTCTATATG
66 ACCCTAGTATCAATACCCTTACTAGAAGTATCGATACTCTACCCTTGATATCGATACTCTATATG
1502292 AGTATCGATACCAA
131 AGTATCGATACCAA
1502306 CGGGTGCT-GGGTATCGATACTGGCCTGAGTATCAATACTAAAATTAGGTTCGATGTTTTGAAAA
1 CGGGTGCTGGGGTATCGATACTGGCCTGAGTATCAATACTAAAATTAGGTTCGATGTTTTGAAAA
1502370 ACCCTAGTATCAATACCCTTACTAGAAGTATCGATACTCTACCCTTGATATCGATACTCTATATG
66 ACCCTAGTATCAATACCCTTACTAGAAGTATCGATACTCTACCCTTGATATCGATACTCTATATG
1502435 AGTATCGATACCAA
131 AGTATCGATACCAA
1502449 AATGTCCACT
Statistics
Matches: 143, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
143 135 0.94
144 8 0.06
ACGTcount: A:0.31, C:0.20, G:0.18, T:0.31
Consensus pattern (144 bp):
CGGGTGCTGGGGTATCGATACTGGCCTGAGTATCAATACTAAAATTAGGTTCGATGTTTTGAAAA
ACCCTAGTATCAATACCCTTACTAGAAGTATCGATACTCTACCCTTGATATCGATACTCTATATG
AGTATCGATACCAA
Found at i:1502442 original size:19 final size:19
Alignment explanation
Indices: 1502396--1502445 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
1502386 CCTTACTAGA
1502396 AGTATCGATACTCTACCCTTG
1 AGTATCGATACTCTA--CTTG
1502417 A-TATCGATACTCTA-TATG
1 AGTATCGATACTCTACT-TG
1502435 AGTATCGATAC
1 AGTATCGATAC
1502446 CAAAATGTCC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
17 1 0.04
18 3 0.11
19 9 0.33
20 13 0.48
21 1 0.04
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.34
Consensus pattern (19 bp):
AGTATCGATACTCTACTTG
Found at i:1504277 original size:33 final size:34
Alignment explanation
Indices: 1504206--1504286 Score: 146
Period size: 34 Copynumber: 2.4 Consensus size: 34
1504196 CTATGAGGAA
1504206 GGTATTGATACCATTGATAACAGAATGCAAAAAT
1 GGTATTGATACCATTGATAACAGAATGCAAAAAT
1504240 GGTATTGATACCATTGATAACAGAATGC-AAAAT
1 GGTATTGATACCATTGATAACAGAATGCAAAAAT
*
1504273 GGTATCGATACCAT
1 GGTATTGATACCAT
1504287 AATAGAGTAC
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 18 0.39
34 28 0.61
ACGTcount: A:0.41, C:0.14, G:0.19, T:0.27
Consensus pattern (34 bp):
GGTATTGATACCATTGATAACAGAATGCAAAAAT
Found at i:1504740 original size:57 final size:57
Alignment explanation
Indices: 1504676--1505114 Score: 672
Period size: 57 Copynumber: 7.8 Consensus size: 57
1504666 ATAGCACTGA
* * *
1504676 GTGTGCAAAAAGTTAAGAAATTCATAATAAGATTATGGATTTCCGTATGGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
* * *
1504733 GTGTGCAAAATGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATAGGCACTTT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
* * * *
1504790 CTGTGTAAAAAGTTAAAAAAATTCAT-A--A--TTATGAATTTTCGTATGGGCACTTT
1 GTGTGCAAAAAGTT-AAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
*
1504843 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTGT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
*
1504900 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTAT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
* * *
1504957 GTGTGAAAAAAGTTAAGAAATTCTTAATTAGTTTATGAATTTCCGTATGGGCACTAT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
*
1505014 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTGT
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
* *
1505071 GTATGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAGTTTCC
1 GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCC
1505115 ATATTGGTAT
Statistics
Matches: 353, Mismatches: 23, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
52 10 0.03
53 36 0.10
55 2 0.01
57 295 0.84
58 10 0.03
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.36
Consensus pattern (57 bp):
GTGTGCAAAAAGTTAAGAAATTCATAATTAGTTTATGAATTTCCGTATGGGCACTTT
Found at i:1506627 original size:3 final size:3
Alignment explanation
Indices: 1506619--1506663 Score: 76
Period size: 3 Copynumber: 15.7 Consensus size: 3
1506609 AACAATACAA
1506619 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT AAT -AT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1506664 AAAATATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
2 4 0.10
3 36 0.90
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:1509220 original size:17 final size:17
Alignment explanation
Indices: 1509198--1509232 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
1509188 ATTCATGGAT
1509198 TAAAA-TATCTATTTTGG
1 TAAAATTATC-ATTTTGG
1509215 TAAAATTATCATTTTGG
1 TAAAATTATCATTTTGG
1509232 T
1 T
1509233 CTCTAAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.34, C:0.06, G:0.11, T:0.49
Consensus pattern (17 bp):
TAAAATTATCATTTTGG
Found at i:1511132 original size:26 final size:26
Alignment explanation
Indices: 1511102--1511152 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
1511092 GGTCTGACGT
*
1511102 GGCAGTTTCTAAAAGGTCTAGTCAGC
1 GGCAGTTTCTAAAAGATCTAGTCAGC
*
1511128 GGCAGTTTCTATAAGATCTAGTCAG
1 GGCAGTTTCTAAAAGATCTAGTCAG
1511153 AACGCCTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.29
Consensus pattern (26 bp):
GGCAGTTTCTAAAAGATCTAGTCAGC
Found at i:1514958 original size:5 final size:5
Alignment explanation
Indices: 1514948--1515140 Score: 377
Period size: 5 Copynumber: 38.6 Consensus size: 5
1514938 TGACATTAAA
1514948 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1514998 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1515048 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
*
1515098 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT TTGAT ATG
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATG
1515141 CATGTGCACT
Statistics
Matches: 186, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
5 186 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.40
Consensus pattern (5 bp):
ATGAT
Found at i:1516722 original size:21 final size:22
Alignment explanation
Indices: 1516698--1516759 Score: 56
Period size: 22 Copynumber: 2.9 Consensus size: 22
1516688 GATCCATCGC
*
1516698 AAAAAGAGATCGATTCTTTTGA
1 AAAAAGAGATCGATTCTTTTCA
* ** * *
1516720 AAAAAGGGATTAATCCTTTAC-
1 AAAAAGAGATCGATTCTTTTCA
1516741 AAAAAGAGATCGA-TCTTTT
1 AAAAAGAGATCGATTCTTTT
1516760 TTATGGAAAT
Statistics
Matches: 29, Mismatches: 11, Indels: 2
0.69 0.26 0.05
Matches are distributed among these distances:
20 4 0.14
21 10 0.34
22 15 0.52
ACGTcount: A:0.42, C:0.11, G:0.16, T:0.31
Consensus pattern (22 bp):
AAAAAGAGATCGATTCTTTTCA
Found at i:1526440 original size:23 final size:21
Alignment explanation
Indices: 1526391--1526469 Score: 79
Period size: 21 Copynumber: 3.7 Consensus size: 21
1526381 AGGGTTCTAC
* *
1526391 GAGGTCCTTCGAGACATATAT
1 GAGGTCCTTCGGGATATATAT
1526412 -ATGGTCCTTCGGGATAATTATAT
1 GA-GGTCCTTCGGGAT-A-TATAT
*
1526435 GAGGTCCTTCAGGATATATAT
1 GAGGTCCTTCGGGATATATAT
* *
1526456 GTGGTCCTTTGGGA
1 GAGGTCCTTCGGGA
1526470 CATTCTATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
20 1 0.02
21 27 0.56
22 2 0.04
23 17 0.35
24 1 0.02
ACGTcount: A:0.24, C:0.15, G:0.27, T:0.34
Consensus pattern (21 bp):
GAGGTCCTTCGGGATATATAT
Found at i:1529310 original size:4 final size:4
Alignment explanation
Indices: 1529301--1529330 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
1529291 CTTCTCAAAT
*
1529301 ATAC ATAC ATAC ATAC ATGC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
1529331 GTATATTAGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.27
Consensus pattern (4 bp):
ATAC
Found at i:1530638 original size:15 final size:15
Alignment explanation
Indices: 1530618--1530651 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
1530608 AAACTGTGGT
1530618 GAGCATGACGTGGGC
1 GAGCATGACGTGGGC
*
1530633 GAGCATGGCGTGGGC
1 GAGCATGACGTGGGC
1530648 GAGC
1 GAGC
1530652 GGTCGTGGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.21, G:0.50, T:0.12
Consensus pattern (15 bp):
GAGCATGACGTGGGC
Found at i:1533399 original size:27 final size:27
Alignment explanation
Indices: 1533358--1533411 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1533348 AGCACTCTCC
*
1533358 TCTGTTCTAACTGAATAGATGTTTTAG
1 TCTGTTCTAACTGAATAGAGGTTTTAG
* *
1533385 TCTGTTCTGATTGAATAGAGGTTTTAG
1 TCTGTTCTAACTGAATAGAGGTTTTAG
1533412 CATTCACATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.24, C:0.09, G:0.22, T:0.44
Consensus pattern (27 bp):
TCTGTTCTAACTGAATAGAGGTTTTAG
Found at i:1533846 original size:15 final size:15
Alignment explanation
Indices: 1533826--1533856 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1533816 TTAAAATTAA
*
1533826 AATAAAATATTATTT
1 AATAAAATACTATTT
1533841 AATAAAATACTATTT
1 AATAAAATACTATTT
1533856 A
1 A
1533857 TATCTAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (15 bp):
AATAAAATACTATTT
Found at i:1540749 original size:23 final size:23
Alignment explanation
Indices: 1540714--1540786 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1540704 CAGCTTGTAT
1540714 AAATGCACCGAAGTGCCACGTAG
1 AAATGCACCGAAGTGCCACGTAG
* ** * *
1540737 AATTGCATTGAAGTTCCGCGTAG
1 AAATGCACCGAAGTGCCACGTAG
*
1540760 AAATGCACCGAAGTGCCACATA-
1 AAATGCACCGAAGTGCCACGTAG
1540782 AAATG
1 AAATG
1540787 TCCATAAGGA
Statistics
Matches: 39, Mismatches: 11, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
22 5 0.13
23 34 0.87
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (23 bp):
AAATGCACCGAAGTGCCACGTAG
Found at i:1540800 original size:22 final size:23
Alignment explanation
Indices: 1540775--1540822 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1540765 CACCGAAGTG
* *
1540775 CCACATA-AAATGTCCATAAGGA
1 CCACATAGAAATCTCCATAAGAA
*
1540797 CCACATAGAAATCTCCTTAAGAA
1 CCACATAGAAATCTCCATAAGAA
1540820 CCA
1 CCA
1540823 TATACATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 7 0.32
23 15 0.68
ACGTcount: A:0.44, C:0.27, G:0.10, T:0.19
Consensus pattern (23 bp):
CCACATAGAAATCTCCATAAGAA
Found at i:1541435 original size:35 final size:37
Alignment explanation
Indices: 1541389--1541463 Score: 102
Period size: 36 Copynumber: 2.1 Consensus size: 37
1541379 AGGTCCAAAA
* *
1541389 ATGGTATCGATAC-CTGCC-TTCTGGTATCGATACC-C
1 ATGGTATCGATACTATCCCTTTC-GGTATCGATACCTC
1541424 ATGGTATCGATACTATCCCTTTCGGTATCGATACCTC
1 ATGGTATCGATACTATCCCTTTCGGTATCGATACCTC
1541461 ATG
1 ATG
1541464 AAGATGTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
35 13 0.37
36 15 0.43
37 7 0.20
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (37 bp):
ATGGTATCGATACTATCCCTTTCGGTATCGATACCTC
Found at i:1547552 original size:23 final size:23
Alignment explanation
Indices: 1547521--1547566 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
1547511 CACCACAACT
* *
1547521 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAATGCCA
1547544 CGTAGAAATGCACCGAAATGCCA
1 CGTAGAAATGCACCGAAATGCCA
1547567 TATAAAATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.37, C:0.26, G:0.22, T:0.15
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAATGCCA
Found at i:1547656 original size:21 final size:20
Alignment explanation
Indices: 1547613--1547691 Score: 70
Period size: 21 Copynumber: 3.9 Consensus size: 20
1547603 TAAGAAACAT
* * *
1547613 ATATAT-TCCAAAGAACCAA
1 ATATATGTCCAAAGGACTAC
*
1547632 ATATATGTCTCAAAGGACTGC
1 ATATATGTC-CAAAGGACTAC
* *
1547653 ATATATGGTCCAAAGGATTAT
1 ATATAT-GTCCAAAGGACTAC
1547674 ATATATGTCCCAAAGGAC
1 ATATATGT-CCAAAGGAC
1547692 AACGTAGACC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.12
20 4 0.08
21 35 0.73
22 3 0.06
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.27
Consensus pattern (20 bp):
ATATATGTCCAAAGGACTAC
Found at i:1547657 original size:42 final size:42
Alignment explanation
Indices: 1547610--1547691 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
1547600 CCTTAAGAAA
* *
1547610 CATATATATTCCAAAGAACCAAATATATGTCTCAAAGGACTG
1 CATATATAGTCCAAAGAACCAAATATATGTCCCAAAGGACTG
* * ** *
1547652 CATATATGGTCCAAAGGATTATATATATGTCCCAAAGGAC
1 CATATATAGTCCAAAGAACCAAATATATGTCCCAAAGGAC
1547692 AACGTAGACC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (42 bp):
CATATATAGTCCAAAGAACCAAATATATGTCCCAAAGGACTG
Found at i:1548235 original size:44 final size:44
Alignment explanation
Indices: 1548160--1548251 Score: 130
Period size: 44 Copynumber: 2.1 Consensus size: 44
1548150 AATTCACATT
* * *
1548160 TTCCTTATTAAGTAGTGTCGGTACCCAAGGTACAGTACCAATAC
1 TTCCCTATTAAGTAGTATCGGTACACAAGGTACAGTACCAATAC
* * *
1548204 TTCCCTATTAAGTAGTATCGGTATACTAGGTACAGTACCGATAC
1 TTCCCTATTAAGTAGTATCGGTACACAAGGTACAGTACCAATAC
1548248 TTCC
1 TTCC
1548252 TTTATAATGG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 42 1.00
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.32
Consensus pattern (44 bp):
TTCCCTATTAAGTAGTATCGGTACACAAGGTACAGTACCAATAC
Found at i:1548362 original size:15 final size:15
Alignment explanation
Indices: 1548342--1548384 Score: 68
Period size: 15 Copynumber: 2.9 Consensus size: 15
1548332 ACCTGCCTTC
*
1548342 TGGTATCGATACTCG
1 TGGTATCGATACTCA
*
1548357 TGGTATCGATACCCA
1 TGGTATCGATACTCA
1548372 TGGTATCGATACT
1 TGGTATCGATACT
1548385 ACCCCTTTCG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (15 bp):
TGGTATCGATACTCA
Found at i:1552912 original size:46 final size:45
Alignment explanation
Indices: 1552817--1553016 Score: 251
Period size: 45 Copynumber: 4.4 Consensus size: 45
1552807 TATAAAATTT
* * *
1552817 CTTATCATTTA-TCCTATAAGCTCATAAGCTTATTTTACCAATATA
1 CTTACCATTTATTCC-ATAAGCTCGTAAGCTGATTTTACCAATATA
* * *
1552862 CTTACCATTTAATCCATAATCTCGTAAGCTTATTTTTACCAATATA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTGA-TTTTACCAATATA
*
1552908 CTTACCCTTTTATTCCATAAGCTCGTAAGCTGATTTTACCAATATA
1 CTTA-CCATTTATTCCATAAGCTCGTAAGCTGATTTTACCAATATA
* * * *
1552954 CTTACCATTTGTTCCAGAAGCTCGCAAGCTGATTTTACCAATACA
1 CTTACCATTTATTCCATAAGCTCGTAAGCTGATTTTACCAATATA
*
1552999 CTTTCCA-TTATTCCATAA
1 CTTACCATTTATTCCATAA
1553017 TTATATACCA
Statistics
Matches: 137, Mismatches: 15, Indels: 7
0.86 0.09 0.04
Matches are distributed among these distances:
44 9 0.07
45 67 0.49
46 37 0.27
47 24 0.18
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.39
Consensus pattern (45 bp):
CTTACCATTTATTCCATAAGCTCGTAAGCTGATTTTACCAATATA
Found at i:1552983 original size:92 final size:91
Alignment explanation
Indices: 1552824--1553001 Score: 250
Period size: 92 Copynumber: 1.9 Consensus size: 91
1552814 TTTCTTATCA
* * * *
1552824 TTTATCCTATAAGCTCATAAGCTTATTTTACCAATATACTTACCATTTAATCCATAATCTCGTAA
1 TTTATCCTATAAGCTCATAAGCTGATTTTACCAATATACTTACCATTTAATCCAGAAGCTCGCAA
* *
1552889 GCTTATTTTTACCAATATACTTACCCT
66 GCTGA-TTTTACCAATACACTTACCCT
* **
1552916 TTTATTCC-ATAAGCTCGTAAGCTGATTTTACCAATATACTTACCATTTGTTCCAGAAGCTCGCA
1 TTTA-TCCTATAAGCTCATAAGCTGATTTTACCAATATACTTACCATTTAATCCAGAAGCTCGCA
1552980 AGCTGATTTTACCAATACACTT
65 AGCTGATTTTACCAATACACTT
1553002 TCCATTATTC
Statistics
Matches: 76, Mismatches: 9, Indels: 3
0.86 0.10 0.03
Matches are distributed among these distances:
91 15 0.20
92 58 0.76
93 3 0.04
ACGTcount: A:0.30, C:0.23, G:0.08, T:0.39
Consensus pattern (91 bp):
TTTATCCTATAAGCTCATAAGCTGATTTTACCAATATACTTACCATTTAATCCAGAAGCTCGCAA
GCTGATTTTACCAATACACTTACCCT
Found at i:1553220 original size:61 final size:61
Alignment explanation
Indices: 1553104--1553220 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
1553094 GTTAAACTTG
* * * *
1553104 CACTAAGCTTACGCCATAGTGCTAATCCGGATATGACACGTAAGGTCGTGCCCACCACCTA
1 CACTAAGCTTACGCCATAGTGCTAATCCAGACATGACACATAAGGTCGTACCCACCACCTA
* * * *
1553165 CACTAAGCTTACGCTATAGTGCTAATCCAGACATGATATATAAGGTCGTATCCACC
1 CACTAAGCTTACGCCATAGTGCTAATCCAGACATGACACATAAGGTCGTACCCACC
1553221 TTTCCTGCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (61 bp):
CACTAAGCTTACGCCATAGTGCTAATCCAGACATGACACATAAGGTCGTACCCACCACCTA
Found at i:1557848 original size:3 final size:3
Alignment explanation
Indices: 1557842--1557928 Score: 129
Period size: 3 Copynumber: 28.7 Consensus size: 3
1557832 ATTTATTTAC
* *
1557842 TAT TAT TAT TATT TAT TAT TAT TAC TAT AAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
1557888 TAT TAT AAA TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1557929 AATATATATA
Statistics
Matches: 75, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
3 72 0.96
4 3 0.04
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1558066 original size:16 final size:16
Alignment explanation
Indices: 1558041--1558081 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
1558031 TTCTAACCCT
1558041 AGCCGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
*
1558057 AGCTGCCTCTGCCTCC
1 AGCCGCCTCTGCCTCC
1558073 AGCCGCCTC
1 AGCCGCCTC
1558082 AGCCAACGGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.07, C:0.54, G:0.20, T:0.20
Consensus pattern (16 bp):
AGCCGCCTCTGCCTCC
Found at i:1570474 original size:5 final size:5
Alignment explanation
Indices: 1570458--1570514 Score: 55
Period size: 5 Copynumber: 11.4 Consensus size: 5
1570448 ATTATACTTG
* * *
1570458 AAGAA AAAAA AAGAA AA-AA AAGGAA AAGAA AAGAG AA-AA GAGAA AAGAAA
1 AAGAA AAGAA AAGAA AAGAA AA-GAA AAGAA AAGAA AAGAA AAGAA AAG-AA
1570508 AAGAA AA
1 AAGAA AA
1570515 AGGGGGTCAA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
4 6 0.14
5 27 0.64
6 9 0.21
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:1570489 original size:20 final size:19
Alignment explanation
Indices: 1570458--1570515 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 19
1570448 ATTATACTTG
*
1570458 AAGAAAAAAAAAGAAAAAA
1 AAGAAAAGAAAAGAAAAAA
*
1570477 AAGGAAAAGAAAAGAGAAAA
1 AA-GAAAAGAAAAGAAAAAA
*
1570497 GAGAAAAGAAAAAGAAAAA
1 AAGAAAAG-AAAAGAAAAA
1570516 GGGGGTCAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 8 0.24
20 25 0.76
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (19 bp):
AAGAAAAGAAAAGAAAAAA
Found at i:1570853 original size:16 final size:16
Alignment explanation
Indices: 1570827--1570871 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
1570817 TTTGAATACA
*
1570827 ATTCTATTTATTTCAAG
1 ATTCAATTTATTT-AAG
*
1570844 -TTCAATTTATTTGAG
1 ATTCAATTTATTTAAG
1570859 ATTCAATTTATTT
1 ATTCAATTTATTT
1570872 TCGAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 2 0.08
16 23 0.92
ACGTcount: A:0.29, C:0.09, G:0.07, T:0.56
Consensus pattern (16 bp):
ATTCAATTTATTTAAG
Found at i:1571792 original size:83 final size:83
Alignment explanation
Indices: 1571651--1571964 Score: 515
Period size: 83 Copynumber: 3.8 Consensus size: 83
1571641 ACATTAGCTG
* * *
1571651 GAAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGCTCTTTGAGTTATCTAATCTGG-TTGG-A
1 GAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1571714 CAGAACCAATCATTGAATTT
66 -A-AACCAATCATTGAATTT
* * *
1571734 GGAAGATGAATGTGCTCATAGCATCTTCTGGGAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1 GAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1571799 AAACCAATCATTGAATTT
66 AAACCAATCATTGAATTT
*
1571817 GAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCCTTGAGTTATCTGATCTGGTTTGGTA
1 GAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
* *
1571882 AAACCAGTTATTGAATTT
66 AAACCAATCATTGAATTT
1571900 GAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1 GAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
1571965 TGAAACCACA
Statistics
Matches: 218, Mismatches: 11, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
83 212 0.97
84 5 0.02
85 1 0.00
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (83 bp):
GAAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA
AAACCAATCATTGAATTT
Found at i:1572119 original size:115 final size:115
Alignment explanation
Indices: 1571917--1572231 Score: 569
Period size: 115 Copynumber: 2.7 Consensus size: 115
1571907 GAATGTGCTC
1571917 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
*
1571982 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTCA
66 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAAGAGACTCA
*
1572032 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAAAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
1572097 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAAGAGACTCA
66 TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAAGAGACTCA
* *
1572147 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAG-AACTACAGAACCAA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
* *
1572211 TCATTGGAATTAAAAGATGAA
66 TCATTGGATTTGAAAGATGAA
1572232 CTGCATGATC
Statistics
Matches: 193, Mismatches: 7, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
114 31 0.16
115 162 0.84
ACGTcount: A:0.33, C:0.14, G:0.21, T:0.32
Consensus pattern (115 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAAACCACAGAACCAA
TCATTGGATTTGAAAGATGAATTTGCTCATAGTAGAAATAAAGAGACTCA
Found at i:1573359 original size:116 final size:116
Alignment explanation
Indices: 1572906--1573932 Score: 1324
Period size: 116 Copynumber: 9.0 Consensus size: 116
1572896 TAGCAAAAAG
* * * * *
1572906 TTAAATCCATCATTCAATGGATTAGCTTTTCCAGAGGA-AGTTCATAATGAGAAGAA--C-TCAT
1 TTAAATCCATCATTCAATGGATTAACATTGCCAG-GTAGAGTTCATAATAAGAAGAACTCGTCAT
* * *
1572967 CTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 CTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
* * * *** * ** * *
1573019 TCAAATACATCACTT-GATGGATCCGCTTTTTCAGAGGA-AGTTCATAATGAGAAGAA--C-TCA
1 TTAAATCCATCA-TTCAATGGATTAACATTGCCAG-GTAGAGTTCATAATAAGAAGAACTCGTCA
* * *
1573079 TCTGAAGAAGGATGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
64 TCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
* * * *** * * *
1573132 TCAAATCTATCACTT-GATGGATTATTTTTTCCAGAG-AAAGTTCATAATGAGAAGAA--C-TCA
1 TTAAATCCATCA-TTCAATGGATTAACATTGCCAG-GTAGAGTTCATAATAAGAAGAACTCGTCA
* * *
1573192 TCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTTGT
64 TCTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
* * ** *
1573245 TTGAATTCATCATTTGATGGATCAACATTGCCAGGTAGAGTTCATAATAAGAAGAACTCGTCATC
1 TTAAATCCATCATTCAATGGATTAACATTGCCAGGTAGAGTTCATAATAAGAAGAACTCGTCATC
*
1573310 TGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTCCAACCTTTTGT
66 TGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
1573361 TTAAATCCATCATTCAATGGATTAACATTGCCAGGTAGAGTTCATAATAAGAAGAACTCGTCATC
1 TTAAATCCATCATTCAATGGATTAACATTGCCAGGTAGAGTTCATAATAAGAAGAACTCGTCATC
*
1573426 TGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAAGCTTTTGT
66 TGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
1573477 TTAAATCCATCATTCAATGGATTAACATTGCCAGGTAGAGTTCATAATAAGAAGAACTCGTCATC
1 TTAAATCCATCATTCAATGGATTAACATTGCCAGGTAGAGTTCATAATAAGAAGAACTCGTCATC
*
1573542 TGAAGAAGGAAGAATAAGTTCATAATGAGATGAATTTGTTCAACCTTTTGT
66 TGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
1573593 TTAAATCCATCATTCAATGGATTAACATTGCCAGGTAGAGTTCATAATAAGAAGAACTCGTCATC
1 TTAAATCCATCATTCAATGGATTAACATTGCCAGGTAGAGTTCATAATAAGAAGAACTCGTCATC
* *
1573658 TGAAGAAGGAAGAATAAGTTCATAATGAGATGAATTTGTTCAACCTTTTAT
66 TGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
*
1573709 TTAAATCCATCATTCAATGGATTAACATTGCCAGGTAGAG-TCTATAATTAGAAGAACTCGTCAT
1 TTAAATCCATCATTCAATGGATTAACATTGCCAGGTAGAGTTC-ATAATAAGAAGAACTCGTCAT
* * *
1573773 CTGAAGAAGGAATAATAAGTTCATAATAAGAGGAATTTGTTCAACCTTTTGT
65 CTGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
* ** * * *
1573825 TTAAATTCATCATTTGATGGATTAACATTGCCAGGTAAAGTTCATAATGAGAAGAA--C-TCATT
1 TTAAATCCATCATTCAATGGATTAACATTGCCAGGTAGAGTTCATAATAAGAAGAACTCGTCATC
* ** *
1573887 TGAAGAA-GAAG---AAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTG
66 TGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTG
1573933 CATAATTCTA
Statistics
Matches: 847, Mismatches: 58, Indels: 22
0.91 0.06 0.02
Matches are distributed among these distances:
109 31 0.04
112 7 0.01
113 255 0.30
114 3 0.00
115 3 0.00
116 546 0.64
117 2 0.00
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.31
Consensus pattern (116 bp):
TTAAATCCATCATTCAATGGATTAACATTGCCAGGTAGAGTTCATAATAAGAAGAACTCGTCATC
TGAAGAAGGAAGAATAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGT
Found at i:1574052 original size:84 final size:82
Alignment explanation
Indices: 1573898--1574081 Score: 199
Period size: 84 Copynumber: 2.2 Consensus size: 82
1573888 GAAGAAGAAG
* * * ** * * *
1573898 AAGTTCATAATAAGAAGAGCTTGTTCAACTTTTTGCATAATTCTATCACAGAAGGAGATAGATTA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTAAATAACTCTATCACAGAAGGAAATAGATCA
*
1573963 GCATCAGCCTTTCCAG-AGA
66 ACATCAGCC---CCAGCAGA
* * *
1573982 AAGTTCATAATGAGAAGAGCTTATTTAACCTTTTAAATGACTCTATCACAGAAGGAAATAGGTCA
1 AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTAAATAACTCTATCACAGAAGGAAATAGATCA
*
1574047 ACATCATCCCCAGCAGA
66 ACATCAGCCCCAGCAGA
* *
1574064 AGGTTCATAATGAAAAGA
1 AAGTTCATAATGAGAAGA
1574082 ATTCATCTGA
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
81 4 0.05
82 19 0.23
84 61 0.73
ACGTcount: A:0.39, C:0.17, G:0.17, T:0.27
Consensus pattern (82 bp):
AAGTTCATAATGAGAAGAGCTTATTCAACCTTTTAAATAACTCTATCACAGAAGGAAATAGATCA
ACATCAGCCCCAGCAGA
Found at i:1574257 original size:3 final size:3
Alignment explanation
Indices: 1574249--1574314 Score: 96
Period size: 3 Copynumber: 21.7 Consensus size: 3
1574239 ATTTATTTAC
* * *
1574249 TAT TAT TAT TATT TAT TAT TAT TAC TAT AAT AAT TAT TAT TAT TAT
1 TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1574295 TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TA
1574315 AATATATATA
Statistics
Matches: 58, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
3 55 0.95
4 3 0.05
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:1574323 original size:2 final size:2
Alignment explanation
Indices: 1574316--1574340 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1574306 TTATTATTAA
1574316 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1574341 ATAATAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1574452 original size:16 final size:16
Alignment explanation
Indices: 1574431--1574468 Score: 76
Period size: 16 Copynumber: 2.4 Consensus size: 16
1574421 TAACCCTAGT
1574431 CGCCTCTGCCTCCAGC
1 CGCCTCTGCCTCCAGC
1574447 CGCCTCTGCCTCCAGC
1 CGCCTCTGCCTCCAGC
1574463 CGCCTC
1 CGCCTC
1574469 AGCCAACGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.05, C:0.58, G:0.18, T:0.18
Consensus pattern (16 bp):
CGCCTCTGCCTCCAGC
Found at i:1584361 original size:34 final size:32
Alignment explanation
Indices: 1584301--1584370 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
1584291 CCTTACAAAC
* *
1584301 TCCCTAGTTTTTCTGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACTGAGCTAAACTAGAACCTT
*
1584333 TCCCTAGCTTTTACATGAGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-TGAGCTAAACTAGAACCTT
1584367 TCCC
1 TCCC
1584371 CTTTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.23, C:0.29, G:0.14, T:0.34
Consensus pattern (32 bp):
TCCCTAGTTTTACTGAGCTAAACTAGAACCTT
Found at i:1584665 original size:21 final size:22
Alignment explanation
Indices: 1584631--1584672 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1584621 TCAAAAAGGC
1584631 TGCCCATAACATGGTGCATCGG
1 TGCCCATAACATGGTGCATCGG
*
1584653 TGCCC-TATCATGGTGCATCG
1 TGCCCATAACATGGTGCATCG
1584673 ATACCCCTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.19, C:0.29, G:0.26, T:0.26
Consensus pattern (22 bp):
TGCCCATAACATGGTGCATCGG
Found at i:1584749 original size:20 final size:20
Alignment explanation
Indices: 1584724--1584791 Score: 82
Period size: 20 Copynumber: 3.4 Consensus size: 20
1584714 TTCGTGCATG
*
1584724 GATGCACAGCAGGATGTATC
1 GATGCACAGCAGGATGAATC
**
1584744 GATGCACAGCCTTGATGAATC
1 GATGCACAG-CAGGATGAATC
* *
1584765 GATGCACAGAAGGATGCATC
1 GATGCACAGCAGGATGAATC
1584785 GATGCAC
1 GATGCAC
1584792 TAATTGCATT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 23 0.57
21 17 0.43
ACGTcount: A:0.31, C:0.22, G:0.28, T:0.19
Consensus pattern (20 bp):
GATGCACAGCAGGATGAATC
Found at i:1584903 original size:21 final size:20
Alignment explanation
Indices: 1584813--1584953 Score: 151
Period size: 21 Copynumber: 6.7 Consensus size: 20
1584803 GGTGTTTGAG
*
1584813 TGCATGGATGCACTGCATGA
1 TGCATGGATGCACTGCAGGA
*
1584833 TGCATCGATGCACTACTGCAGG-
1 TGCATGGATG--C-ACTGCAGGA
*
1584855 TGCATGGAAGCACTAGTTCAGG-
1 TGCATGGATGCACT-G--CAGGA
1584877 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCACTGCA-GGA
1584898 TGCATGGATGCACTGCAGGGA
1 TGCATGGATGCACTGCA-GGA
*
1584919 TGCATGGATGCACTGCAGGGG
1 TGCATGGATGCACTGCA-GGA
1584940 TGCATGGATGCACT
1 TGCATGGATGCACT
1584954 TTGACACCCT
Statistics
Matches: 107, Mismatches: 6, Indels: 15
0.84 0.05 0.12
Matches are distributed among these distances:
19 5 0.05
20 13 0.12
21 56 0.52
22 26 0.24
23 7 0.07
ACGTcount: A:0.23, C:0.21, G:0.34, T:0.22
Consensus pattern (20 bp):
TGCATGGATGCACTGCAGGA
Found at i:1585064 original size:29 final size:31
Alignment explanation
Indices: 1585032--1585091 Score: 106
Period size: 29 Copynumber: 2.0 Consensus size: 31
1585022 AAACTTTGAA
1585032 TAAATTCAATT-AAGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1585061 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1 TAAATTCAATTCAAGTCCAAAAATCATTTTG
1585092 CCTTAAATTG
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
29 11 0.38
30 11 0.38
31 7 0.24
ACGTcount: A:0.43, C:0.15, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAATCATTTTG
Found at i:1586122 original size:126 final size:127
Alignment explanation
Indices: 1585896--1586153 Score: 392
Period size: 126 Copynumber: 2.0 Consensus size: 127
1585886 TCTTATTTCA
* * *
1585896 ATGTCATCTTTACTTTCATCCCCGATGTCTATCAAGTCTCTGGGGGTATTACGGAGCACAACATA
1 ATGTCATCTCTACTTCCATCCCCGATGTCTATCAAGTCTCTGGGGGTATTACGAAGCACAACATA
* * *
1585961 CCAACCCTCATCCATTGGATCATGACAGTAAAAAACCTGTTTGACTTGAGAATAAAATACAT
66 CCAACCCTCATCCATTAGATCATGACAGTAAAAAACCTATTTGACTTGAGAAGAAAATACAT
* *
1586023 ATGTCATCTCTACTTCCATCCCTGATGTCTATCAAGTCTCT-GGGGTATTATGAAGCACAACATA
1 ATGTCATCTCTACTTCCATCCCCGATGTCTATCAAGTCTCTGGGGGTATTACGAAGCACAACATA
* * * * *
1586087 CTAACCCTCATTCATTAGATCATGGCAGTAAAAAACCTATTTGACTTGGGAAGAAAATATAT
66 CCAACCCTCATCCATTAGATCATGACAGTAAAAAACCTATTTGACTTGAGAAGAAAATACAT
1586149 ATGTC
1 ATGTC
1586154 TCATCCATCA
Statistics
Matches: 118, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
126 80 0.68
127 38 0.32
ACGTcount: A:0.32, C:0.22, G:0.16, T:0.30
Consensus pattern (127 bp):
ATGTCATCTCTACTTCCATCCCCGATGTCTATCAAGTCTCTGGGGGTATTACGAAGCACAACATA
CCAACCCTCATCCATTAGATCATGACAGTAAAAAACCTATTTGACTTGAGAAGAAAATACAT
Found at i:1598055 original size:41 final size:41
Alignment explanation
Indices: 1598010--1598242 Score: 242
Period size: 41 Copynumber: 5.7 Consensus size: 41
1598000 GATGTGTTTT
* * *
1598010 CTAAAGTACGAGTCTTTAGCGGCATTTGTATAAAAATGCTA
1 CTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCA
*
1598051 CTAAAGTACGAGT-TTATAGCAGCGTTTGTATAAAAAC-CCA
1 CTAAAGTACGAGTCTT-TAGCGGCGTTTGTATAAAAACGCCA
* * *
1598091 -TGAAAGTACTAGTTTTTAGCGGCATTTGTATAAAAACGCCA
1 CT-AAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCA
* * *
1598132 CTAAAGTACGAGT-TTATATCGGTGTTTGTATAAAAATGCCA
1 CTAAAGTACGAGTCTT-TAGCGGCGTTTGTATAAAAACGCCA
** * *
1598173 C-AATAGTACGAGTCTTTAGTAGCGTTTGTATAAAAACGTCG
1 CTAA-AGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCA
* * *
1598214 CTAAAGTAAGAGTCTTTTGCGACGTTTGT
1 CTAAAGTACGAGTCTTTAGCGGCGTTTGT
1598243 TCAAAAAACT
Statistics
Matches: 159, Mismatches: 24, Indels: 18
0.79 0.12 0.09
Matches are distributed among these distances:
39 1 0.01
40 37 0.23
41 116 0.73
42 5 0.03
ACGTcount: A:0.33, C:0.15, G:0.20, T:0.32
Consensus pattern (41 bp):
CTAAAGTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCA
Found at i:1598147 original size:81 final size:81
Alignment explanation
Indices: 1598012--1598226 Score: 270
Period size: 81 Copynumber: 2.6 Consensus size: 81
1598002 TGTGTTTTCT
* *
1598012 AAAGTACGAGTCTTTAGCGGCATTTGTATAAAAATGCTACTAAAGTACGAGTTTATAGCAGCGTT
1 AAAGTACGAGTCTTTAGCGGCATTTGTATAAAAACGCCACTAAAGTACGAGTTTATAGCAGCGTT
*
1598077 TGTATAAAAA-CCCATG
66 TGTATAAAAATCCCA-C
* * * * *
1598093 AAAGTACTAGTTTTTAGCGGCATTTGTATAAAAACGCCACTAAAGTACGAGTTTATATCGGTGTT
1 AAAGTACGAGTCTTTAGCGGCATTTGTATAAAAACGCCACTAAAGTACGAGTTTATAGCAGCGTT
*
1598158 TGTATAAAAATGCCAC
66 TGTATAAAAATCCCAC
** * * * *
1598174 AATAGTACGAGTCTTTAGTAGCGTTTGTATAAAAACGTCGCTAAAGTAAGAGT
1 AA-AGTACGAGTCTTTAGCGGCATTTGTATAAAAACGCCACTAAAGTACGAGT
1598227 CTTTTGCGAC
Statistics
Matches: 115, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
81 70 0.61
82 45 0.39
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.31
Consensus pattern (81 bp):
AAAGTACGAGTCTTTAGCGGCATTTGTATAAAAACGCCACTAAAGTACGAGTTTATAGCAGCGTT
TGTATAAAAATCCCAC
Found at i:1599960 original size:11 final size:11
Alignment explanation
Indices: 1599946--1599970 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1599936 TGAAATTACA
1599946 CAAATAATGTG
1 CAAATAATGTG
1599957 CAAATAATGTG
1 CAAATAATGTG
1599968 CAA
1 CAA
1599971 GTATACATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.48, C:0.12, G:0.16, T:0.24
Consensus pattern (11 bp):
CAAATAATGTG
Found at i:1607633 original size:18 final size:18
Alignment explanation
Indices: 1607612--1607651 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
1607602 CACTAAGCTT
1607612 TCATCATCCACCAAATAA
1 TCATCATCCACCAAATAA
** *
1607630 TCATTTTCTACCAAATAA
1 TCATCATCCACCAAATAA
1607648 TCAT
1 TCAT
1607652 TTTCTGCTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.40, C:0.28, G:0.00, T:0.33
Consensus pattern (18 bp):
TCATCATCCACCAAATAA
Found at i:1607652 original size:18 final size:18
Alignment explanation
Indices: 1607621--1607656 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1607611 TTCATCATCC
1607621 ACCAAATAATCATTTTCT
1 ACCAAATAATCATTTTCT
1607639 ACCAAATAATCATTTTCT
1 ACCAAATAATCATTTTCT
1607657 GCTAGCTGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.22, G:0.00, T:0.39
Consensus pattern (18 bp):
ACCAAATAATCATTTTCT
Found at i:1611120 original size:23 final size:23
Alignment explanation
Indices: 1611075--1611120 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1611065 AATAAAGAAC
*
1611075 CAAAATAAACTCAAATATATCAT
1 CAAAATAAACTCAAACATATCAT
*
1611098 CAAAATAAAGTCTAAACAT-TCAT
1 CAAAATAAACTC-AAACATATCAT
1611121 TAAACCAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 15 0.75
24 5 0.25
ACGTcount: A:0.54, C:0.17, G:0.02, T:0.26
Consensus pattern (23 bp):
CAAAATAAACTCAAACATATCAT
Found at i:1614379 original size:24 final size:24
Alignment explanation
Indices: 1614351--1614430 Score: 85
Period size: 24 Copynumber: 3.4 Consensus size: 24
1614341 AAAACTACAG
1614351 CGTAGAATTTGCACCGAAGTGCCA
1 CGTAGAATTTGCACCGAAGTGCCA
* *
1614375 CGTAGAATATGCACCGAAGTACCA
1 CGTAGAATTTGCACCGAAGTGCCA
**
1614399 TATAG-ATTTGTC-CCGAAG-GACCA
1 CGTAGAATTTG-CACCGAAGTG-CCA
1614422 CGTAGAATT
1 CGTAGAATT
1614431 GTCCCGAAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 6
0.76 0.14 0.10
Matches are distributed among these distances:
23 16 0.36
24 29 0.64
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.23
Consensus pattern (24 bp):
CGTAGAATTTGCACCGAAGTGCCA
Found at i:1614421 original size:23 final size:23
Alignment explanation
Indices: 1614388--1614498 Score: 141
Period size: 23 Copynumber: 4.8 Consensus size: 23
1614378 AGAATATGCA
* * *
1614388 CCGAAGTACCATATAGATTTGTC
1 CCGAAGGACCACATAGAATTGTC
*
1614411 CCGAAGGACCACGTAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
*
1614434 CCGAAGGACTACATAGAATTGTC
1 CCGAAGGACCACATAGAATTGTC
* *
1614457 CCGAATGACCACATAGAATTGTT
1 CCGAAGGACCACATAGAATTGTC
* *
1614480 CCGAAGGACCGCGTAGAAT
1 CCGAAGGACCACATAGAAT
1614499 CTCTCGACTA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 76 1.00
ACGTcount: A:0.32, C:0.23, G:0.23, T:0.22
Consensus pattern (23 bp):
CCGAAGGACCACATAGAATTGTC
Found at i:1614456 original size:46 final size:46
Alignment explanation
Indices: 1614364--1614498 Score: 148
Period size: 46 Copynumber: 2.9 Consensus size: 46
1614354 AGAATTTGCA
* * *
1614364 CCGAAGTG-CCACGTAGAATATG-CACCGAAGTACCATATAGATTTGTC
1 CCGAAG-GACCACGTAGAAT-TGTC-CCGAAGGACCACATAGAATTGTC
*
1614411 CCGAAGGACCACGTAGAATTGTCCCGAAGGACTACATAGAATTGTC
1 CCGAAGGACCACGTAGAATTGTCCCGAAGGACCACATAGAATTGTC
* * * * *
1614457 CCGAATGACCACATAGAATTGTTCCGAAGGACCGCGTAGAAT
1 CCGAAGGACCACGTAGAATTGTCCCGAAGGACCACATAGAAT
1614499 CTCTCGACTA
Statistics
Matches: 76, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
46 58 0.76
47 18 0.24
ACGTcount: A:0.33, C:0.24, G:0.23, T:0.21
Consensus pattern (46 bp):
CCGAAGGACCACGTAGAATTGTCCCGAAGGACCACATAGAATTGTC
Done.